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2DDB
Biol. Unit 1
Info
Asym.Unit (157 KB)
Biol.Unit 1 (42 KB)
Biol.Unit 2 (41 KB)
Biol.Unit 3 (42 KB)
Biol.Unit 4 (40 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PSEUDECIN FROM PSEUDECHIS PORPHYRIACUS
Authors
:
N. Suzuki, Y. Yamazaki, Z. Fujimoto, T. Morita, H. Mizuno
Date
:
25 Jan 06 (Deposition) - 30 Jan 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Crisp, Snake Venom, Cng Channel, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Suzuki, Y. Yamazaki, R. L. Brown, Z. Fujimoto, T. Morita, H. Mizuno
Structures Of Pseudechetoxin And Pseudecin, Two Snake-Venom Cysteine-Rich Secretory Proteins That Target Cyclic Nucleotide-Gated Ion Channels: Implications For Movement Of The C-Terminal Cysteine-Rich Domain
Acta Crystallogr. , Sect. D V. 64 1034 2008
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: FORMIC ACID (FMTa)
1b: FORMIC ACID (FMTb)
1c: FORMIC ACID (FMTc)
1d: FORMIC ACID (FMTd)
1e: FORMIC ACID (FMTe)
1f: FORMIC ACID (FMTf)
1g: FORMIC ACID (FMTg)
1h: FORMIC ACID (FMTh)
1i: FORMIC ACID (FMTi)
1j: FORMIC ACID (FMTj)
1k: FORMIC ACID (FMTk)
1l: FORMIC ACID (FMTl)
1m: FORMIC ACID (FMTm)
1n: FORMIC ACID (FMTn)
1o: FORMIC ACID (FMTo)
1p: FORMIC ACID (FMTp)
1q: FORMIC ACID (FMTq)
1r: FORMIC ACID (FMTr)
1s: FORMIC ACID (FMTs)
1t: FORMIC ACID (FMTt)
1u: FORMIC ACID (FMTu)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FMT
7
Ligand/Ion
FORMIC ACID
2
GOL
3
Ligand/Ion
GLYCEROL
3
NA
-1
Ligand/Ion
SODIUM ION
[
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Sites
(15, 15)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC6 (SOFTWARE)
05: AC8 (SOFTWARE)
06: BC2 (SOFTWARE)
07: BC5 (SOFTWARE)
08: BC6 (SOFTWARE)
09: BC7 (SOFTWARE)
10: BC8 (SOFTWARE)
11: CC2 (SOFTWARE)
12: CC6 (SOFTWARE)
13: DC1 (SOFTWARE)
14: DC3 (SOFTWARE)
15: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:72 , GLN A:73 , SER A:127 , HOH A:774 , HOH A:977 , HOH B:976
BINDING SITE FOR RESIDUE NA A 301
02
AC3
SOFTWARE
HOH A:568 , SER B:72 , GLN B:73 , SER B:127 , HOH B:957
BINDING SITE FOR RESIDUE NA B 303
03
AC5
SOFTWARE
SER A:102 , VAL A:103 , ILE A:104 , GLY A:105 , SER D:183 , LYS D:186
BINDING SITE FOR RESIDUE FMT A 305
04
AC6
SOFTWARE
VAL A:20 , LYS A:21 , TYR A:85 , ILE A:88 , TYR A:107
BINDING SITE FOR RESIDUE FMT A 306
05
AC8
SOFTWARE
LYS A:61 , VAL B:20 , LYS B:21 , TYR B:85 , ILE B:88 , TYR B:107 , HOH B:946
BINDING SITE FOR RESIDUE FMT B 308
06
BC2
SOFTWARE
SER A:183 , LYS A:186 , VAL D:103 , ILE D:104 , GLY D:105 , HOH D:800
BINDING SITE FOR RESIDUE FMT D 311
07
BC5
SOFTWARE
GLU A:8 , ARG A:46 , HOH A:842 , HOH A:1065 , HOH A:1066
BINDING SITE FOR RESIDUE FMT A 314
08
BC6
SOFTWARE
TYR A:5 , TRP A:77 , ALA A:121 , SER A:122 , FMT A:324 , HOH A:850
BINDING SITE FOR RESIDUE FMT A 315
09
BC7
SOFTWARE
LYS A:124 , SER A:127 , SER B:102 , VAL B:103 , HOH B:915
BINDING SITE FOR RESIDUE FMT A 316
10
BC8
SOFTWARE
SER A:126 , ASN A:165 , HOH A:805
BINDING SITE FOR RESIDUE FMT A 317
11
CC2
SOFTWARE
HIS A:51 , SER D:188 , THR D:192
BINDING SITE FOR RESIDUE FMT D 320
12
CC6
SOFTWARE
SER A:122 , FMT A:315 , GOL A:331 , HOH A:793
BINDING SITE FOR RESIDUE FMT A 324
13
DC1
SOFTWARE
ASN A:26 , LYS A:151 , HIS A:206 , LYS A:208 , ILE A:209 , ILE A:210 , HOH A:480 , HOH A:932 , HOH A:984
BINDING SITE FOR RESIDUE GOL A 328
14
DC3
SOFTWARE
LYS A:12 , ALA A:15 , LEU A:16 , SER A:19 , LYS A:41 , ARG A:42 , ASP A:45 , HOH A:442 , HOH A:761
BINDING SITE FOR RESIDUE GOL A 330
15
DC4
SOFTWARE
ARG A:18 , SER A:19 , LYS A:21 , ASP A:45 , ALA A:123 , LYS A:124 , ARG A:166 , FMT A:324
BINDING SITE FOR RESIDUE GOL A 331
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: CRISP_1 (A:105-115)
2: CRISP_2 (A:131-142)
3: SHKT (A:172-205)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CRISP_1
PS01009
CRISP family signature 1.
CRVP_PSEPO
133-143
1
A:105-115
-
-
-
2
CRISP_2
PS01010
CRISP family signature 2.
CRVP_PSEPO
159-170
1
A:131-142
-
-
-
3
SHKT
PS51670
ShKT domain profile.
CRVP_PSEPO
200-233
1
A:172-205
-
-
-
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2ddba1 (A:4-153)
1b: SCOP_d2ddbb1 (B:2-153)
1c: SCOP_d2ddbc1 (C:4-153)
1d: SCOP_d2ddbd1 (D:2-153)
2a: SCOP_d2ddba2 (A:154-210)
2b: SCOP_d2ddbb2 (B:154-210)
2c: SCOP_d2ddbc2 (C:154-210)
2d: SCOP_d2ddbd2 (D:154-210)
View:
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)
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)
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)
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)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
PR-1-like
(14)
Superfamily
:
PR-1-like
(14)
Family
:
automated matches
(4)
Protein domain
:
automated matches
(4)
Pseudechis porphyriacus [TaxId: 8671]
(2)
1a
d2ddba1
A:4-153
1b
d2ddbb1
B:2-153
1c
d2ddbc1
C:4-153
1d
d2ddbd1
D:2-153
Class
:
Small proteins
(3458)
Fold
:
Crisp domain-like
(13)
Superfamily
:
Crisp domain-like
(13)
Family
:
automated matches
(8)
Protein domain
:
automated matches
(8)
Pseudechis porphyriacus [TaxId: 8671]
(2)
2a
d2ddba2
A:154-210
2b
d2ddbb2
B:154-210
2c
d2ddbc2
C:154-210
2d
d2ddbd2
D:154-210
[
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]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2ddbB01 (B:2-169)
1b: CATH_2ddbD01 (D:2-169)
1c: CATH_2ddbA01 (A:4-169)
1d: CATH_2ddbC01 (C:4-169)
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Topologies
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Pathogenesis-related Protein p14a
(12)
Homologous Superfamily
:
Pathogenesis-related Protein p14a
(12)
Red-bellied black snake (Pseudechis porphyriacus)
(2)
1a
2ddbB01
B:2-169
1b
2ddbD01
D:2-169
1c
2ddbA01
A:4-169
1d
2ddbC01
C:4-169
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain A
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (157 KB)
Header - Asym.Unit
Biol.Unit 1 (42 KB)
Header - Biol.Unit 1
Biol.Unit 2 (41 KB)
Header - Biol.Unit 2
Biol.Unit 3 (42 KB)
Header - Biol.Unit 3
Biol.Unit 4 (40 KB)
Header - Biol.Unit 4
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